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Coexpression cluster:C3028

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Full id: C3028_Smooth_CD14_renal_heart_normal_meningioma_Renal



Phase1 CAGE Peaks

Hg19::chr10:6019461..6019494,-p2@IL15RA
Hg19::chr10:6019499..6019551,-p1@IL15RA
Hg19::chr10:6019552..6019585,-p3@IL15RA


Enriched pathways on this co-expression cluster<b>Summary:</b><br>Canonical pathway gene sets were compiled from Reactome, Wikipathways and KEGG. For the major signaling pathways, the transcriptionally-regulated genes (downstream targets) were obtained from Netpath. Combined, the canonical pathways and downstream targets totaled 489 human gene sets. The corresponding M. musculus gene sets were inferred by homology using the HomoloGene database. Enrichment for each of the canonical 489 pathways and gene sets included in the co-expression cluster was assessed by the hypergeometric probability. The resulting P values were also then adjusted by the Benjamini-Hochberg method for multiple comparisons.<br><b>Analyst: </b>Emmanuel Dimont<br><br>link to source dataset<br>data


No results for this coexpression

Enriched Gene Ontology terms on this co-expression cluster<b>Summary:</b> Results for GOStat analysis on co-expressed clusters. Each cluster with promoters mapping to at least two different genes was analysed with GOStat (PMID: 14962934) with default parameter. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br>data


No GOStat results

Enriched sample ontology terms on this co-expression cluster<b>Summary:</b>To summarize promoter activities (expression profile of a TSS region) across ~1000 samples, we performed enrichment analysis based on FANTOM5 Sample Ontology (FF ontology). The question here is “in which type of samples the promoter is more active”. To answer this question, we compared expressions (TPMs) in the samples associated with a sample ontology term and the rest of the samples by using the Mann-Whitney rank sum test. To summarize ontologies enriched in this co-expression cluster, we ran the same analysis on an averaged expression profile of all promoters that make up. <b>Analyst:</b> Hideya Kawaji <br><br>links to source dataset<br><br>cell_data<br>uberon_data<br><br>


Cell Type
Ontology termp-valuen
classical monocyte1.73e-1642
CD14-positive, CD16-negative classical monocyte1.73e-1642
defensive cell6.35e-1548
phagocyte6.35e-1548
meso-epithelial cell2.34e-1345
endothelial cell1.52e-1236
lining cell2.41e-1258
barrier cell2.41e-1258
monopoietic cell6.20e-1259
monocyte6.20e-1259
monoblast6.20e-1259
promonocyte6.20e-1259
macrophage dendritic cell progenitor1.25e-1061
nongranular leukocyte7.44e-10115
endothelial cell of vascular tree7.90e-1024
myeloid lineage restricted progenitor cell8.11e-1066
granulocyte monocyte progenitor cell4.31e-0867
myeloid leukocyte5.39e-0872
mesodermal cell9.91e-08121
hematopoietic lineage restricted progenitor cell1.33e-07120
blood vessel endothelial cell1.33e-0718
embryonic blood vessel endothelial progenitor cell1.33e-0718
squamous epithelial cell7.78e-0763


Overrepresented TFBS (DNA) motifs on this co-expression cluster<b>Summary:</b>The values shown are the p-values for overrepresentation of the motif in this coexpression cluster. So a small p-value means a strong overrepresentation. <b>Analyst:</b> Michiel de Hoon <br><br>link to source data <br> Novel motifs <br>data <br><br> Jaspar motifs <br>data


Novel motifs



JASPAR motifs

Motifs-log10(p-value)

{{{tfbs_overrepresentation_jaspar}}}



ENCODE TF ChIP-seq peak enrichment analysis<b>Summary:</b> For each TF and each co-expression cluster, the number of promoters with ENCODE TF ChIP signal was compared with the rest of promoters from the robust set using Fisher's exact test. Clusters with significant ChIP enrichment (q <= 0.05) after Benjamini-Hochberg correction were retained. <br><b>Analyst:</b> Erik Arner<br><br>link to source dataset<br><br>data


(#promoters = Number of promoters in this coexpression cluster that have ChIP signal of the TF)

TF#promotersEnrichmentp-valueq-value
CCNT2#90536.336201576962630.003930750035764890.0189059410051234
E2F6#187635.017155731697390.00791769806886330.0320249590881071
ETS1#211339.728760922202340.001085840092584840.00759520818628811
FOS#235338.99795530889440.001372499272417130.00894604328228
FOSL1#8061339.7135797163731.59554825631833e-050.000370058770467756
HMGN3#932438.178547723350590.001827766942164210.0108263470776253
IRF1#365937.63716375356390.002244692747297240.0127575895643762
JUNB#3726330.61063265982113.4847716247536e-050.000679510947941825
JUND#372736.994663941871030.002921845042734990.0156097280893242
MAFK#7975327.10073313782995.02195559325033e-050.000855887761428642
SMARCB1#6598318.25271578115740.000164397760679890.00202542617997488
TFAP2A#7020316.5186343730450.0002218033880766340.00247303555538973
TFAP2C#7022310.80922860986020.0007916746575753130.00612820260617463
ZBTB7A#5134137.35190930787590.002516255860282270.013958423848304
ZNF263#1012738.221841637010680.001799043925565870.0108896689777544



Relative expression of the co-expression cluster<b>Summary:</b>Co-expression clusters are compared against FANTOM5 samples to obtain relative expression. <br><b>Analyst:</b>NA<br><br>link to data source<br> data


This analysis result is provided for C0 - C305 clusters.